Contacts of the helix formed by residues 181 - 192 (chain A) in PDB entry 1EIA
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with ILE 181 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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177A HIS* 3.1 38.1 - - + +
178A PRO* 2.7 42.5 + - + +
180A GLU* 1.3 76.5 - - - +
182A SER* 1.3 61.6 + - - +
183A LYS 3.2 0.2 - - - -
184A PHE* 3.8 8.4 - - + +
185A LEU* 3.0 43.0 + - + +
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Residues in contact with SER 182 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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172A ILE* 3.9 17.7 - - - +
173A LYS* 5.9 1.4 - - - -
177A HIS* 4.0 28.0 - - - -
178A PRO 3.3 3.1 + - - -
179A GLN* 4.4 8.1 - - - -
180A GLU 3.3 0.2 - - - -
181A ILE* 1.3 83.4 - - - +
183A LYS* 1.3 56.2 + - - +
185A LEU* 3.3 2.3 + - - +
186A THR* 2.9 40.6 + - - +
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Residues in contact with LYS 183 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179A GLN* 4.0 12.1 - - + +
180A GLU* 3.4 24.5 - - - +
182A SER* 1.3 77.1 - - - +
184A PHE* 1.3 62.6 + - - +
186A THR* 2.9 8.3 + - - +
187A ASP* 2.8 68.7 + - + +
208A GLU* 5.4 7.2 + - - +
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Residues in contact with PHE 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180A GLU 2.8 22.3 + - - +
181A ILE* 3.8 9.2 - - + +
183A LYS* 1.3 75.2 - - - +
185A LEU* 1.3 67.4 + - + +
187A ASP* 4.5 4.0 - - - -
188A THR* 2.4 71.0 + - + +
192A GLN* 6.0 0.7 - - - -
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Residues in contact with LEU 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150A ALA* 4.8 0.9 - - + -
151A GLN* 3.7 26.0 - - - +
172A ILE* 3.7 20.6 - - + +
175A GLU* 4.4 5.6 - - - +
177A HIS* 3.7 39.5 - - + +
181A ILE* 3.0 30.9 + - + +
182A SER 3.6 4.7 - - - +
183A LYS 3.1 0.2 - - - -
184A PHE* 1.3 91.8 - - + +
186A THR* 1.3 56.0 + - - +
188A THR* 3.6 2.0 - - - +
189A LEU* 2.9 45.1 + - + +
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Residues in contact with THR 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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168A LEU* 5.0 0.9 - - - -
169A LEU* 3.6 27.8 - - + -
172A ILE* 3.5 28.3 - - + -
182A SER* 2.9 24.3 + - - +
183A LYS* 2.9 14.4 + - - +
185A LEU* 1.3 73.9 - - - +
187A ASP* 1.3 71.5 + - - +
190A THR* 2.6 43.7 + - - +
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Residues in contact with ASP 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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183A LYS* 2.8 63.6 + - + +
184A PHE* 3.9 4.7 - - - +
186A THR* 1.3 80.1 + - - +
188A THR* 1.3 61.1 + - + +
190A THR* 2.9 5.5 + - - -
191A ILE* 3.6 2.9 - - - +
207A PRO* 3.2 34.8 - - + +
208A GLU* 3.8 15.9 - - - +
209A ASP 5.7 0.2 - - - -
214A LYS* 2.9 23.9 + - - +
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Residues in contact with THR 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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184A PHE* 2.4 65.1 + - + +
185A LEU* 3.3 6.2 + - - +
187A ASP* 1.3 78.0 - - + +
189A LEU* 1.3 66.7 + - - +
190A THR 3.3 0.2 - - - -
191A ILE* 3.2 4.9 + - - +
192A GLN* 3.0 49.9 + - - +
207A PRO* 3.7 21.3 - - + -
208A GLU* 5.1 2.2 - - - +
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Residues in contact with LEU 189 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150A ALA* 3.7 38.6 - - + +
151A GLN* 4.0 13.2 - - + +
164A PHE* 3.8 4.5 - - - -
168A LEU* 3.5 23.8 - - + -
172A ILE* 4.3 2.0 - - + -
185A LEU* 2.9 39.5 + - + +
188A THR* 1.3 78.4 + - - +
190A THR* 1.3 61.4 + - - +
191A ILE 2.9 7.3 + - - -
192A GLN* 4.1 15.0 - - - +
193A ASN* 3.1 47.9 + - + +
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Residues in contact with THR 190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161A TYR* 2.6 40.7 + - - +
164A PHE* 4.6 4.3 - - - -
165A VAL* 4.6 11.9 - - + -
168A LEU* 3.9 17.3 - - + -
169A LEU* 5.0 3.8 - - + -
186A THR* 2.6 33.9 + - - +
187A ASP 2.9 2.6 + - - -
189A LEU* 1.3 76.9 - - - +
191A ILE* 1.3 60.8 + - - +
194A ALA* 3.8 3.4 - - - +
202A MET* 4.0 2.1 - - - +
211A LEU* 4.0 19.5 - - + -
214A LYS* 2.8 29.8 + - - -
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Residues in contact with ILE 191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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187A ASP 3.6 17.7 - - - +
188A THR 3.2 4.5 + - - +
189A LEU 2.9 1.0 - - - -
190A THR* 1.3 77.1 - - - +
192A GLN* 1.3 63.8 + - + +
193A ASN 3.2 0.7 - - - -
194A ALA* 2.8 34.0 + - - +
199A ARG* 3.3 14.9 - - + +
202A MET* 4.1 20.2 - - + +
205A LEU* 4.4 17.0 - - + +
206A ARG 4.0 12.8 - - - +
207A PRO* 3.9 15.7 - - + -
214A LYS* 3.6 30.1 - - + -
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Residues in contact with GLN 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154A ARG* 5.7 0.2 - - - +
184A PHE* 6.0 0.6 - - - -
188A THR* 3.0 38.7 + - - +
189A LEU* 4.1 13.0 - - - +
191A ILE* 1.3 85.4 - - + +
193A ASN* 1.3 67.5 + - - +
194A ALA 3.9 0.9 - - - +
199A ARG* 3.4 20.6 + - - +
207A PRO* 4.9 7.1 - - - +
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il